{"files"=>["https://ndownloader.figshare.com/files/820000"], "description"=>"<p>(A) Likelihood ratio tests and detection of the D1, D2 and cytoplasmic tail (CYT) positions positively selected. Analysis was performed for all the hominoid sequences together and with just the human or chimpanzee or gorilla sequences; the number of sequences in each analysis is indicated in parentheses. For the cytoplasmic tail analyses all the sequences with an early termination (short tail KIR) were excluded. In addition, because of the risk of recombination between exon 7 and exon 8 (see <a href=\"http://www.plosgenetics.org/article/info:doi/10.1371/journal.pgen.1001192#pgen-1001192-g003\" target=\"_blank\">Figure 3C</a>) a reduced dataset was also created (CYT-R) where the nine amino acids encoded by exon 7 were discarded and the Pt-KIR2DL9 amino acids encoded by exon 8 were masked. Similarly, because the cytoplasmic tail of KIR2DL3*007 and the D2 domain of KIR2DL1*004 showed evidence of gene conversion, additional analyses were performed where these sequences were discarded: datasets CYT-R2 and D2-R, respectively. 2ΔL, two times the difference in likelihood between the models allowing for positive selection (M2a and M8) and the models that do not (null models: M1a, M7 and M8a). The significance level (α) is indicated when the null models were significantly rejected. NS, not significant. *: α∼0.01. When significant evidence of positive diversifying selection was obtained, the residues detected with model M8 were listed (underlined residues: p>0.95; boldened residues: p>0.99; **: p∼0.90). (B) Residues observed at the positively selected positions in the D1, D2 and CYT domains. Amino acids unique to one species are highlighted in yellow. In the summary section, amino acids only found on activating KIR are highlighted in red while those only found on inhibitory KIR are highlighted in green.</p>", "links"=>[], "tags"=>["lineage", "iii"], "article_id"=>490368, "categories"=>["Infectious Diseases", "Immunology", "Evolutionary Biology", "Genetics"], "users"=>["Laurent Abi-Rached", "Achim K. Moesta", "Raja Rajalingam", "Lisbeth A. Guethlein", "Peter Parham"], "doi"=>"https://dx.doi.org/10.1371/journal.pgen.1001192.g005", "stats"=>{"downloads"=>3, "page_views"=>2, "likes"=>0}, "figshare_url"=>"https://figshare.com/articles/_Analysis_of_positive_selection_in_the_lineage_III_KIR_/490368", "title"=>"Analysis of positive selection in the lineage III KIR.", "pos_in_sequence"=>0, "defined_type"=>1, "published_date"=>"2010-11-04 00:06:08"}